Human Gene TMOD3 (ENST00000308580.12_4) from GENCODE V47lift37
  Description: tropomodulin 3 (from RefSeq NM_014547.5)
Gencode Transcript: ENST00000308580.12_4
Gencode Gene: ENSG00000138594.14_9
Transcript (Including UTRs)
   Position: hg19 chr15:52,121,850-52,207,922 Size: 86,073 Total Exon Count: 10 Strand: +
Coding Region
   Position: hg19 chr15:52,155,082-52,201,007 Size: 45,926 Coding Exon Count: 9 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr15:52,121,850-52,207,922)mRNA (may differ from genome)Protein (352 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsHGNC
MGIOMIMPubMedReactomeUniProtKBWikipedia
BioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: TMOD3_HUMAN
DESCRIPTION: RecName: Full=Tropomodulin-3; AltName: Full=Ubiquitous tropomodulin; Short=U-Tmod;
FUNCTION: Blocks the elongation and depolymerization of the actin filaments at the pointed end. The Tmod/TM complex contributes to the formation of the short actin protofilament, which in turn defines the geometry of the membrane skeleton (By similarity).
SUBUNIT: Binds to the N-terminus of tropomyosin and to actin (By similarity).
SUBCELLULAR LOCATION: Cytoplasm, cytoskeleton (By similarity).
TISSUE SPECIFICITY: Ubiquitous.
SIMILARITY: Belongs to the tropomodulin family.

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 26.95 RPKM in Esophagus - Mucosa
Total median expression: 320.81 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
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-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -110.00258-0.426 Picture PostScript Text
3' UTR -2380.806915-0.344 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR004934 - Tropomodulin

Pfam Domains:
PF03250 - Tropomodulin
PF13516 - Leucine Rich repeat

SCOP Domains:
52047 - RNI-like

ModBase Predicted Comparative 3D Structure on Q9NYL9
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003779 actin binding
GO:0005523 tropomyosin binding
GO:0098641 cadherin binding involved in cell-cell adhesion

Biological Process:
GO:0006936 muscle contraction
GO:0007015 actin filament organization
GO:0030036 actin cytoskeleton organization
GO:0030239 myofibril assembly
GO:0048821 erythrocyte development
GO:0051694 pointed-end actin filament capping
GO:0098609 cell-cell adhesion
GO:1901992 positive regulation of mitotic cell cycle phase transition

Cellular Component:
GO:0005737 cytoplasm
GO:0005856 cytoskeleton
GO:0005865 striated muscle thin filament
GO:0005913 cell-cell adherens junction


-  Descriptions from all associated GenBank mRNAs
  AK312569 - Homo sapiens cDNA, FLJ92944, Homo sapiens tropomodulin 3 (ubiquitous) (TMOD3), mRNA.
BX647277 - Homo sapiens mRNA; cDNA DKFZp686E1899 (from clone DKFZp686E1899).
AF177171 - Homo sapiens tropomodulin 3 (TMOD3) mRNA, complete cds.
BC020542 - Homo sapiens tropomodulin 3 (ubiquitous), mRNA (cDNA clone MGC:21167 IMAGE:4421113), complete cds.
AF237631 - Homo sapiens ubiquitous tropomodulin U-Tmod mRNA, complete cds.
KJ893696 - Synthetic construct Homo sapiens clone ccsbBroadEn_03090 TMOD3 gene, encodes complete protein.
JD458909 - Sequence 439933 from Patent EP1572962.
AK310344 - Homo sapiens cDNA, FLJ17386.
AL137543 - Homo sapiens mRNA; cDNA DKFZp434P2119 (from clone DKFZp434P2119); partial cds.
JD493849 - Sequence 474873 from Patent EP1572962.
JD297939 - Sequence 278963 from Patent EP1572962.
JD555899 - Sequence 536923 from Patent EP1572962.
JD427643 - Sequence 408667 from Patent EP1572962.
JD280710 - Sequence 261734 from Patent EP1572962.
JD384736 - Sequence 365760 from Patent EP1572962.
AK025704 - Homo sapiens cDNA: FLJ22051 fis, clone HEP09463.
JD344502 - Sequence 325526 from Patent EP1572962.
AF188711 - Homo sapiens clone cD1, mRNA sequence.
JD430439 - Sequence 411463 from Patent EP1572962.
JD529648 - Sequence 510672 from Patent EP1572962.
JD170154 - Sequence 151178 from Patent EP1572962.
JD401514 - Sequence 382538 from Patent EP1572962.
JD401515 - Sequence 382539 from Patent EP1572962.
JD424987 - Sequence 406011 from Patent EP1572962.
JD566845 - Sequence 547869 from Patent EP1572962.
DQ574379 - Homo sapiens piRNA piR-42491, complete sequence.
JD345667 - Sequence 326691 from Patent EP1572962.
AK125687 - Homo sapiens cDNA FLJ43699 fis, clone TCERX2002644.
JD481093 - Sequence 462117 from Patent EP1572962.
JD151016 - Sequence 132040 from Patent EP1572962.
JD360652 - Sequence 341676 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein Q9NYL9 (Reactome details) participates in the following event(s):

R-HSA-390597 Release Of ADP From Myosin
R-HSA-390593 ATP Hydrolysis By Myosin
R-HSA-390598 Myosin Binds ATP
R-HSA-390595 Calcium Binds Troponin-C
R-HSA-390522 Striated Muscle Contraction
R-HSA-397014 Muscle contraction

-  Other Names for This Gene
  Alternate Gene Symbols: B2R6G7, ENST00000308580.1, ENST00000308580.10, ENST00000308580.11, ENST00000308580.2, ENST00000308580.3, ENST00000308580.4, ENST00000308580.5, ENST00000308580.6, ENST00000308580.7, ENST00000308580.8, ENST00000308580.9, NM_014547, Q9NT43, Q9NYL9, Q9NZR0, TMOD3_HUMAN, uc317oij.1, uc317oij.2
UCSC ID: ENST00000308580.12_4
RefSeq Accession: NM_014547.5
Protein: Q9NYL9 (aka TMOD3_HUMAN or TMO3_HUMAN)

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.